Simon R. Harris

37.5k citations

152 papers · 15.7k indexed · 12 hit papers · h-index 58

Impact in

Molecular Medicine top 0.05%
- Antibiotic Resistance in Bacteria
Endocrinology top 0.05%

Papers in

Microbiology 46
- Reproductive tract infections research 26
- Bacterial Infections and Vaccines 24
Molecular Medicine 13

Co-authors: Julian Parkhill Stephen D. Bentley Jacqueline A. Keane Nicholas J. Croucher Andrew J. Page Thomas R. Connor Aidan Delaney Thomas D. Otto
Journals: BMC Genomics (13 papers)Microbial Genomics (9 papers)PLoS Genetics (6 papers)mBio (6 papers)Genome Research (6 papers)
Partner nations: United Kingdom United States Sweden

In The Last Decade

Simon R. Harris

151 papers receiving 15.6k citations

Hit Papers

12 papers align trajectories log scale

Phandango: an interactive viewer for bacterial population genomics 2017 · 415 citations

What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if any of the following hold:

it has ≥500 total citations;
it reaches ≥1.5× the top-1% citation threshold for papers in the same subfield and year (the threshold is the minimum needed to enter the top 1%, not the average within it);
it reaches the top citation threshold in at least one of its specific research topics.

2017 Bioinformatics
2017 Microbial Genomics
2016 Microbial Genomics
2015 Genome biology
2014 Nucleic Acids Research
2014 Nature Genetics
2013 The Lancet
2012 The Lancet Infectious Diseases
2012 BMC Genomics
2012 New England Journal of Medicine
2011 Bioinformatics
2010 Science

Peers

Countries citing papers authored by Simon R. Harris

Since Specialization

Citations

This map shows the geographic impact of Simon R. Harris's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Simon R. Harris with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Simon R. Harris more than expected).

Fields of papers citing papers by Simon R. Harris

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Simon R. Harris. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Simon R. Harris. The network helps show where Simon R. Harris may publish in the future.

Co-authors

The 25 scholars most cited alongside Simon R. Harris, linked wherever they have co-authored with each other. Click a name or a connecting line to browse the papers they share.

Border = papers with Simon R. Harris Line = papers co-authored together Simon R. Harris links everyone, so they are left out of the graph.

All Works

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20 of 20 papers shown

#	Work
1	Reference-Free Variant Calling with Local Graph Construction with ska lo (SKA) PubMed ·Romain Derelle, Kieran Madon, Joel Hellewell, Mia Tosi, Nimalan Arinaminpathy, Ajit Lalvani, Nicholas J. Croucher, Simon R. Harris, John A. Lees, Leonid Chindelevitch	2025	1
2	Mycobacterium tuberculosis complex lineage 5 exhibits high levels of within-lineage genomic diversity and differing gene content compared to the type strain H37Rv Microbial Genomics ·温立三, Mireia Coscollá, Boatema Ofori-Anyinam, Isaac Darko Otchere, Martín Antonio, Stefan Niemann, Julian Parkhill, Simon R. Harris, Dorothy Yeboah‐Manu, Sébastien Gagneux, Leen Rigouts, Dissou Affolabi, Bouke C. de Jong, Conor J. Meehan	2021	12
3	The Distribution and Spread of Susceptible and Resistant Neisseria gonorrhoeae Across Demographic Groups in a Major Metropolitan Center Clinical Infectious Diseases ·Tatum D. Mortimer, Preeti Pathela, Abigail Tolentino, Jennifer L. Rakeman, Ying Lin, Simon R. Harris, Susan Blank, Julia A. Schillinger, Yonatan H. Grad	2020	20
4	Adaptation to the cervical environment is associated with increased antibiotic susceptibility in Neisseria gonorrhoeae Nature Communications ·C. Kevin, Tatum D. Mortimer, Allison L. Hicks, Nicole E. Wheeler, Leonor Sánchez-Busó, Daniel Golparian, George Taiaroa, Daniel H. F. Rubin, Yi Wang, Deborah A. Williamson, Magnus Unemo, Simon R. Harris, Yonatan H. Grad	2020	41
5	Genomic and Phenotypic Variability in Neisseria gonorrhoeae Antimicrobial Susceptibility, England Emerging infectious diseases ·Katy Town, Simon R. Harris, Leonor Sánchez-Busó, Michelle Cole, Rachel Pitt, Helen Fifer, Hamish Mohammed, Nigel Field, Gwenda Hughes	2020	20
6	Genome-wide epistasis and co-selection study using mutual information Nucleic Acids Research ·Johan Pensar, Santeri Puranen, Brian J. Arnold, Neil MacAlasdair, С. А. Муха, Gerry Tonkin‐Hill, Maiju Pesonen, 昌純吉田, 高祥惠, Leonor Sánchez-Busó, John A. Lees, Claire Chewapreecha, Stephen D. Bentley, Simon R. Harris, Julian Parkhill, Nicholas J. Croucher, Jukka Corander	2019	30
7	Genomic determinants of speciation and spread of the Mycobacterium tuberculosis complex Science Advances ·Álvaro Chiner‐Oms, Leonor Sánchez-Busó, Jukka Corander, Sébastien Gagneux, Simon R. Harris, D B Young, Fernando Gónzález‐Candelas, Iñaki Comas	2019	57
8	Phandango: an interactive viewer for bacterial population genomics Bioinformatics ·James Hadfield, Nicholas J. Croucher, Richard Goater, Khalil Abudahab, David M. Aanensen, Simon R. Harris Hit paper breakdown →	2017	415
9	Genomic Dissection of an Icelandic Epidemic of Respiratory Disease in Horses and Associated Zoonotic Cases mBio ·Sigríður Björnsdóttir, Simon R. Harris, Vilhjálmur Svansson, Eggert Gunnarsson, Ólöf Sigurðardóttir, 典弘吉田, Karen F. Steward, J. R. Newton, Carl Robinson, Carmelo Garaitaonaindia Garnacho, Julian Parkhill, Matthew T. G. Holden, Andrew S. Waller	2017	26
10	Convergent evolution and topologically disruptive polymorphisms among multidrug-resistant tuberculosis in Peru PLoS ONE ·Louis Grandjean, Robert H. Gilman, Tomotada Iwamoto, Claudio U. Köser, Jorge Coronel, Mirko Zimic, M. Estée Török, Diepreye Ayabina, Michelle Kendall, Christophe Fraser, Simon R. Harris, Julian Parkhill, Sharon J. Peacock, David Moore, Caroline Colijn	2017	18
11	SNP-sites: rapid efficient extraction of SNPs from multi-FASTA alignments Microbial Genomics ·Andrew J. Page, Ben Taylor, Aidan Delaney, Jorge Soares, Torsten Seemann, Jacqueline A. Keane, Simon R. Harris Hit paper breakdown →	2016	808
12	Robust high-throughput prokaryote de novo assembly and improvement pipeline for Illumina data Microbial Genomics ·Andrew J. Page, Nishadi De Silva, Martin Hunt, Michael A. Quail, Julian Parkhill, Simon R. Harris, Thomas D. Otto, Jacqueline A. Keane	2016	165
13	Genomic Analysis and Comparison of Two Gonorrhea Outbreaks mBio ·Xavier Didelot, Janina Dordel, Lilith K. Whittles, Caitlin Collins, Nicole Bilek, Cynthia Bishop, Peter J White, David M. Aanensen, Julian Parkhill, Stephen D. Bentley, Brian G. Spratt, Simon R. Harris	2016	44
14	Comparative Genomic Analysis of Meningitis- and Bacteremia-Causing Pneumococci Identifies a Common Core Genome Infection and Immunity ·Benard W. Kulohoma, Jennifer Cornick, Chrispin Chaguza, Feyruz Yalçin, Simon R. Harris, Katherine J. Gray, Anmol Kiran, Elizabeth Molyneux, Neil French, Julian Parkhill, Brian Faragher, Dean Everett, Stephen D. Bentley, Robert S. Heyderman	2015	12
15	Whole-genome sequencing to identify transmission of Mycobacterium abscessus between patients with cystic fibrosis: a retrospective cohort study The Lancet ·Josephine M. Bryant, Dorothy Grogono, Daniel Greaves, J. Foweraker, Iain Roddick, Thomas Inns, Mark Reacher, Charles Haworth, Martin D. Curran, Simon R. Harris, Sharon J. Peacock, Julian Parkhill, R. Andrés Floto Hit paper breakdown →	2013	472
16	Whole-genome sequencing to establish relapse or re-infection with Mycobacterium tuberculosis: a retrospective observational study The Lancet Respiratory Medicine ·Josephine M. Bryant, Simon R. Harris, Julian Parkhill, Rodney Dawson, Andreas H. Diacon, Paul D. van Helden, Alexander S. Pym, Aziah Ahmad Mahayiddin, Charoen Chuchottaworn, Ian Sanne, Cheryl Louw, Martin J. Boeree, Michael Höelscher, Timothy D. McHugh, Shoukat Ali, Robert D. Hunt, Solomon Mwaigwisya, Laura Wright, Stephen H. Gillespie, Stephen D. Bentley	2013	153
17	Evolution of MRSA During Hospital Transmission and Intercontinental Spread Science ·Simon R. Harris, Edward J. Feil, Matthew T. G. Holden, Michael A. Quail, Emma K. Nickerson, Narisara Chantratita, Susana Gardete, Ana Tavares, Nick Day, Jodi A. Lindsay, Jonathan D. Edgeworth, Hermı́nia de Lencastre, Julian Parkhill, Sharon J. Peacock, Stephen D. Bentley Hit paper breakdown →	2010	818
18	The archaebacterial origin of eukaryotes Proceedings of the National Academy of Sciences ·Cymon J. Cox, Peter G. Foster, Robert P. Hirt, Simon R. Harris, T. Martin Embley	2008	249
19	Reductive Evolution of the Mitochondrial Processing Peptidases of the Unicellular Parasites Trichomonas vaginalis and Giardia intestinalis PLoS Pathogens ·Ondřej Šmíd, 実松崎, Simon R. Harris, Tomáš Kučera, Marián Novotný, Lenka Horváthová, Ivan Hrdý, Eva Kutějová, Robert P. Hirt, T. Martin Embley, Jiřı́ Janata, Jan Tachezy	2008	48
20	Countering concerted homoplasy Cladistics ·Simon R. Harris, Mark Wilkinson, António Carlos Marques	2003	5

About Simon R. Harris

Simon R. Harris is a scholar working on Microbiology, Molecular Medicine, Infectious Diseases, Endocrinology and Clinical Biochemistry, having authored 152 papers that have together received 15.7k indexed citations. Recurring topics across this work include Genomics and Phylogenetic Studies (32 papers), Reproductive tract infections research (26 papers), Bacterial Infections and Vaccines (24 papers), Mycobacterium research and diagnosis (23 papers), Tuberculosis Research and Epidemiology (20 papers), Antimicrobial Resistance in Staphylococcus (20 papers), Bacterial Identification and Susceptibility Testing (17 papers) and Pneumonia and Respiratory Infections (16 papers). The work is most often cited by research in Molecular Medicine (2.6k citations), Endocrinology (2.4k citations), Microbiology (2.6k citations), Clinical Biochemistry (1.8k citations) and Infectious Diseases (4.6k citations). Simon R. Harris has collaborated with scholars based in United Kingdom, United States and Sweden. Frequent co-authors include Julian Parkhill, Stephen D. Bentley, Jacqueline A. Keane, Nicholas J. Croucher, Andrew J. Page, Thomas R. Connor, Aidan Delaney, Thomas D. Otto, Michael A. Quail and Sharon J. Peacock. Their work appears in journals such as BMC Genomics, Microbial Genomics, PLoS Genetics, mBio and Genome Research.

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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